KIAA1403

Product ID	ORK06679
Accession No	AB037824
Description	RNA polymerase II associated protein 1
Clone name	fg02666s1
Vector information	The cDNA fragment was inserted at the SalI-NotI site of the ... The cDNA fragment was inserted at the SalI-NotI site of the pYO326GW (Amp-r) vector. The 5' end of the cDNA was repaired and ligated with the SalI adapter (5'TCGACCCACG CGTCCG3') and inserted at the SalI site of the vector. The 3'end of the cDNA was inserted at the NotI site of the vector. The original pYO326 shuttle vector (Amp-r) was kindly provided by Y. Ohya (University of Tokyo).
cDNA sequence	DNA sequence (5897 bp) Predicted protein sequence (1337 aa)
Source	Human fetal brain
Rouge ID	mKIAA1403 by Kazusa Mouse cDNA Project
Note	We replaced fg02666, former representative clones for KIAA1403 with fg02666s1. (2002/5/10)

Length: 5897 bp

Physical map

Restriction map

Prediction of protein coding region (GeneMark analysis).

	N-terminal truncation	Coding interruption
cloned DNA seq	No warning	No warning

Integrity of 3' end

Length of 3'UTR	1846 bp
Genome contig ID	gi51511731r_39496669
PolyA signal sequence (AATAAA,-23)	+--------+--------+----*----+---- GTTGTGCATTAAAATAAATGTTTTTTATCTCCTGG
Flanking genome sequence (100000 - 99951)	----+--------+--------+--------+--------+----* AAATTTGATCTGGACTGATTTCAGCCATGTTAGTTCAGGGTTAGTATCTG

Ensembl ContigView (Add our DAS server as a DAS source)

	Chr	f/r	start	end	exon	identity	class
Ensembl gnome browser	15	r	39596669	39623735	24	99.4	Perfect prediction

Length: 1337 aa

Result of homology search against nr database (FASTA output, Multiple alignment)

Entry	ID%	Protein	Source
EAW92503	99.9	RNA polymerase ...	Homo sapiens
Q9BWH6	99.9	RNA polymerase ...	Homo sapiens
EAW92504	99.8	RNA polymerase ...	Homo sapiens
NP_056355	99.8	RNA polymerase ...	Homo sapiens
XP_510325	99.3	RNA polymerase ...	Pan troglodytes

The numbers on the left and right sides of a black line in the graphical overview indicate the lengths (in amino acid residues) of the non-homologous N-terminal and C-terminal portions flanking the homologous region (indicated by the black line), respectively.

Result of homology search against HUGE database (FASTA output, Multiple alignment)

No significant homologues

Result of motif / domain search (InterProScan and SOSUI)

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Result of InterProScan

Search method	interpro_ID	From	To	Entry	Definition
HMMPfam	IPR013930	246	294	PF08621	RNA polymerase II-associated protein 1
HMMPfam	IPR013929	376	447	PF08620	RNA polymerase II-associated protein 1

Prediction of transmembrane (TM) segments

Method	No.	N terminal	transmembrane region	C terminal	type	length
SOSUI2	1	698	RLWAVAASYGQGGYLYRELYPVL	720	SECONDARY	23
	2	743	RIASLLTLLTQLTLAAGSTPAET	765	SECONDARY	23
	3	772	ASLSATPSLVTWTQVSGLQPLVE	794	SECONDARY	23
	4	805	SRPEMWRAVGPVPVACLLFLGA	826	PRIMARY	22
	5	916	LTALLSLLNTLAQIHKGLCGQLA	938	SECONDARY	23

Primer_f	GATGGAAAGATGGGTACGTTG
Primer_r	ATGTAATGGTAGGGCTCACTG
PCR conditions	95 °C30 sec55 °C30 sec72 °C60 sec30 cycles

Panel name	unigene
Primer_f	-
Primer_r	-
PCR product length	-
PCR conditions	-